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Butts, Thomas, Holland, Peter W. H. and Ferrier, David E. K. (2010) Ancient homeobox gene loss and the evolution of chordate brain and pharynx development: deductions from amphioxus gene expression. Proceedings of the Royal Society B: Biological Sciences, 277 (1699). pp. 3381-3389. ISSN 0962-8452
Takatori, Naohito, Butts, Thomas, Candiani, Simona, Pestarino, Mario, Ferrier, David E. K., Saiga, Hidetoshi and Holland, Peter W. H. (2008) Comprehensive survey and classification of homeobox genes in the genome of amphioxus, Branchiostoma floridae. Development Genes and Evolution, 218 (11-12). pp. 579-590. ISSN 0949-944X
Zhong, Ying-Fu, Butts, Thomas and Holland, Peter W. H. (2008) HomeoDB: a database of homeobox gene diversity. Evolution & Development, 10 (5). pp. 516-518. ISSN 1520-541X
Putnam, Nicholas H., Butts, Thomas, Ferrier, David E. K., Furlong, Rebecca F., Hellsten, Uffe, Kawashima, Takeshi, Robinson-Rechavi, Marc, Shoguchi, Eiichi, Terry, Astrid, Yu, Jr-Kai, Benito-Gutiérrez, E`lia, Dubchak, Inna, Garcia-Fernà ndez, Jordi, Gibson-Brown, Jeremy J., Grigoriev, Igor V., Horton, Amy C., de Jong, Pieter J., Jurka, Jerzy, Kapitonov, Vladimir V., Kohara, Yuji, Kuroki, Yoko, Lindquist, Erika, Lucas, Susan, Osoegawa, Kazutoyo, Pennacchio, Len A., Salamov, Asaf A., Satou, Yutaka, Sauka-Spengler, Tatjana, Schmutz, Jeremy, Shin-I, Tadasu, Toyoda, Atsushi, Bronner-Fraser, Marianne, Fujiyama, Asao, Holland, Linda Z., Holland, Peter W. H., Satoh, Nori and Rokhsar, Daniel S. (2008) The amphioxus genome and the evolution of the chordate karyotype. Nature, 453 (7198). pp. 1064-1071. ISSN 0028-0836